Next-generation sequencing and micro RNAs analysis reveal SA/MeJA1/ABA pathway genes mediated systemic acquired resistance (SAR) and its master regulation via production of phased, trans-acting siRNAs against stem rot pathogen Macrophomina phaseolina in a RIL population of jute (Corchorus capsularis)

2014 ◽  
Vol 87 ◽  
pp. 76-85 ◽  
Author(s):  
Chinmay Biswas ◽  
Piyali Dey ◽  
P.G. Karmakar ◽  
Subrata Satpathy
Keyword(s):  
Next Generation Sequencing ◽  
Systemic Acquired Resistance ◽  
Acquired Resistance ◽  
Macrophomina Phaseolina ◽  
Stem Rot ◽  
Next Generation ◽  
Corchorus Capsularis ◽  
Micro Rnas ◽  
Ril Population ◽  
Generation Sequencing

scholarly journals Exosomal miRNAs are potential diagnostic biomarkers between malignant and benign thyroid nodules based on next-generation sequencing

2019 ◽  
Author(s):  
Qunxiong Pan ◽  
Jiangman Zhao ◽  
Mingzhu Li ◽  
Xiaoyu Liu ◽  
Yaping Xu ◽  
...  
Keyword(s):  
Next Generation Sequencing ◽  
Thyroid Nodule ◽  
Target Genes ◽  
Nodular Goiter ◽  
Needle Aspiration ◽  
Mitogen Activated Protein Kinase ◽  
Small Rna Sequencing ◽  
Next Generation ◽  
Micro Rnas ◽  
Generation Sequencing

Abstract An accurate biomarker or method for diagnosis of thyroid nodule with indeterminate fine-needle aspiration result is essential for clinical treatment. Micro RNAs (miRNAs) of exosomes are advantageous in the diagnosis of tumors because they are highly stable, and be protected by a bilayer membrane structure. Exosomes were isolated from 13 papillary thyroid carcinoma (PTC) and 7 nodular goiter (NG) patients’ plasma. Small RNA sequencing was performed on exosomes’ RNA in next-generation sequencing (NGS) platform. Then, we performed comprehensive analysis on miRNA expression profile in exosome of two groups. One hundred and twenty-nine differentially expressed miRNAs were identified in plasma exosomes between PTC and NG patients. Forty-nine miRNAs were up-regulated, and 80 miRNAs were down-regulated in PTC patients. Receiver operating characteristic (ROC) curves of 129 miRNAs were plotted. Area under curve (AUC) of 129 miRNAs was 0.571–0.951, with distribution peak of 0.82–0.86. AUC of 11 miRNAs was above 0.9, miR-5189-3p had the most optimal performance for diagnosis between PTC and NG, with 0.951 of AUC. Target genes of 129 miRNAs were enriched into 7 cancer-related signaling pathways, including mitogen-activated protein kinase (MAPK), tumor necrosis factor (TNF), NF-kappa B signaling pathway and so on. This study profiled the miRNA signature of exosomes from PTC patients and NG patients. We proposed a group of miRNAs in plasma exosomes as candidate biomarkers for thyroid nodule diagnosis.

Larotrectinib followed by selitrectinib in a novel DCTN1–NTRK1 fusion undifferentiated pleomorphic sarcoma

2020 ◽  
pp. 107815522093884
Author(s):  
Xue Na Goh ◽  
Michaela Su-Fern Seng ◽  
Amos Hong Pheng Loh ◽  
Achint Gupta ◽  
Kenneth Tou En Chang ◽  
...  
Keyword(s):  
Next Generation Sequencing ◽  
Soft Tissue ◽  
Gene Fusion ◽  
Acquired Resistance ◽  
Resistance Mutation ◽  
Soft Tissue Sarcomas ◽  
Next Generation ◽  
Pleomorphic Sarcoma ◽  
Trk Inhibitors ◽  
Generation Sequencing

Introduction Neurotrophic receptor tyrosine kinase fusions cause overexpression or activation of kinase and are believed to confer oncogenic potential in some non-rhabdomyosarcoma soft tissue sarcomas. TRK inhibitors have recently been shown to induce responses in these tumours though current experience with these agents is still limited. Case report We report a case of an adolescent with treatment-refractory non-rhabdomyosarcoma soft tissue sarcomas, carrying a novel DCTN1–NTRK1 gene fusion whose progressive disease was treated with multi-kinase and TRK inhibitors. Management and outcome: Our patient was started on pan-TRK inhibitor larotrectinib, as his disease progressed after chemotherapy, radiation therapy and surgery, based on next-generation sequencing test showing DCTN1–NTRK1 gene fusion. He responded quickly to larotrectinib with the improvement of symptoms and reduction of masses. However, this response was short-lived due to the development of acquired solvent front resistance mutation. This patient did not respond to next-generation TRK inhibitor selitrectinib and eventually succumbed to his disease. Discussion The initial rapid and drastic response of our patient to larotrectinib was not sustained due to the development of acquired resistance. This case emphasizes the need for upfront and periodic next-generation sequencing testing to guide treatment of patients with refractory non-rhabdomyosarcoma soft tissue sarcomas.

Validating Alzheimer's disease micro RNAs using next-generation sequencing

2016 ◽  
Vol 12 (5) ◽  
pp. 565-576 ◽  
Author(s):  
Andreas Keller ◽  
Christina Backes ◽  
Jan Haas ◽  
Petra Leidinger ◽  
Walter Maetzler ◽  
...  
Keyword(s):  
Alzheimer’S Disease ◽  
Alzheimer's Disease ◽  
Next Generation Sequencing ◽  
Next Generation ◽  
Micro Rnas ◽  
Generation Sequencing

scholarly journals Association between Exosomal miRNAs and Coronary Artery Disease by Next-Generation Sequencing

Cells ◽  
2021 ◽  
Vol 11 (1) ◽  
pp. 98
Author(s):  
Sheng-Nan Chang ◽  
Jien-Jiun Chen ◽  
Jo-Hsuan Wu ◽  
Yao-Te Chung ◽  
Jin-Wun Chen ◽  
...  
Keyword(s):  
Coronary Artery Disease ◽  
Next Generation Sequencing ◽  
Coronary Artery ◽  
Next Generation ◽  
Altered Expression ◽  
Freeze And Thaw ◽  
Micro Rnas ◽  
Exosomal Mirnas ◽  
Artery Disease ◽  
Generation Sequencing

Background: Among various bio-informative molecules transferred by exosomes between cells, micro RNAs (miRNAs), which remain remarkably stable even after freeze-and-thaw cycles, are excellent candidates for potential biomarkers for coronary artery disease (CAD). Methods: Blood samples were collected from the coronary arteries of 214 patients diagnosed with three-vessel CAD and 140 without CAD. After precipitation extraction, the amounts of exosomes were found to decrease with increased age and three-vessel CAD. Next-generation sequencing was performed to further explore the possible relationship between exosomal miRNAs and CAD. Results: Eight exosomal miRNAs showed altered expression associated with CAD. The up-regulated miRNAs in CAD were miRNA-382-3p, miRNA-432-5p, miRNA-200a-3p, and miRNA-3613-3p. The down-regulated miRNAs were miRNA-125a-5p, miRNA-185-5p, miRNA-151a-3p, and miRNA-328-3p. Conclusion: We successfully demonstrated particular exosomal miRNAs that may serve as future biomarkers for CAD.

Next-Generation Sequencing

2012 ◽  
Vol 42 (9) ◽  
pp. 8
Author(s):  
PETER HULICK
Keyword(s):  
Next Generation Sequencing ◽  
Next Generation ◽  
Generation Sequencing
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